data and script for Banousse et al: Genetic and environmental basis of transcriptional thermal plasticity of brook charr fry

DB_Brain_chip_Laval_calculation.xlsx: This file contains the calculation of N0 (following Tuomi et al. 2010) and Dct (DN0) derived from the Crt, which is the fractional PCR cycle number where fluorescence crosses the quantification threshold.DB_dct_Brain_chip_Laval_Box_Cox.csv: This file includes the dct transformed values (using Box-Cox transformation) for each of the 10 genes (AVT1, BDNF, CART, CCK.L, CIRBPA, DCX, NEUROD1, NPY, PCNA, SOX2).Code_LMM_Brain_chip_Laval.Rmd: This script contains the code used to assess the Linear Mixed Models (LMM) for each of the 10 genes analyzed.data_for_ASREML.zip: This zip file contains the same data as DB_dct_Brain_chip_Laval_Box_Cox.csv, but it is divided based on the parental thermal regimes (cold and warm). Additionally, it includes the pedigree matrix. These files are used in the (ASREML_Brain_chip_Laval.Rmd) to perform quantitative genetic analysis and partition the variance in gene expression into genetic, environmental, and parental components. ASREML_Brain_chip_Laval.Rmd: the code script used for the quantitative genetic analysisdata_for_G X E _analysis.zip : This zip file contains the data used in the GxE_Analysis_Brain_chip_Laval.Rmd script to assess the genotype-by-environment analysis. It includes data exclusively for full-sib families, treated as a single genotype.G X E Analysis_Brain_chip_Lval.Rmd: This script contains the code used to perform the genotype-by-environment (GxE) analysis.